-
1
-
-
84908296177
-
Rank discriminants for predicting phenotypes from RNA expression
-
Afsari,B. et al. (2014) Rank discriminants for predicting phenotypes from RNA expression. Ann. Appl. Stat., 8, 1469-1491.
-
(2014)
Ann. Appl. Stat.
, vol.8
, pp. 1469-1491
-
-
Afsari, B.1
-
2
-
-
0347090327
-
Adjustment of systematic microarray data biases
-
Benito,M. et al. (2004) Adjustment of systematic microarray data biases. Bioinformatics, 20, i105-i114.
-
(2004)
Bioinformatics
, vol.20
, pp. i105-i114
-
-
Benito, M.1
-
3
-
-
84902519819
-
Cross-study validation for the assessment of prediction algorithms
-
Bernau,C. et al. (2014) Cross-study validation for the assessment of prediction algorithms. Bioinformatics, 30, i105-i112.
-
(2014)
Bioinformatics
, vol.30
, pp. i105-i112
-
-
Bernau, C.1
-
4
-
-
67649197934
-
Ratio adjustment and calibration scheme for gene-wise normalization to enhance microarray inter-study prediction
-
Cheng,C. et al. (2009) Ratio adjustment and calibration scheme for gene-wise normalization to enhance microarray inter-study prediction. Bioinformatics, 25, 1655-1661.
-
(2009)
Bioinformatics
, vol.25
, pp. 1655-1661
-
-
Cheng, C.1
-
5
-
-
68349126950
-
Microarray-based gene expression profiling as a clinical tool for breast cancer management: Are we there yet?
-
Correa,G. and Reis-Filho,J. (2009) Microarray-based gene expression profiling as a clinical tool for breast cancer management: are we there yet? Int. J. Surg. Pathol., 17, 285-302.
-
(2009)
Int. J. Surg. Pathol.
, vol.17
, pp. 285-302
-
-
Correa, G.1
Reis-Filho, J.2
-
6
-
-
80054061796
-
Hormone receptor and ERBB2 status in gene expression profiles of human breast tumor samples
-
Dvorkin-Gheva,A. and Hassell,J. (2011) Hormone receptor and ERBB2 status in gene expression profiles of human breast tumor samples. Plos One, 6, e26023.
-
(2011)
Plos One
, vol.6
, pp. e26023
-
-
Dvorkin-Gheva, A.1
Hassell, J.2
-
8
-
-
0002294353
-
Questions and answers #14
-
Fisher,R. (1948) Questions and answers #14. Am. Stat., 2, 30-31.
-
(1948)
Am. Stat.
, vol.2
, pp. 30-31
-
-
Fisher, R.1
-
9
-
-
41149104381
-
Cross-study validation and combined analysis of gene expression microarray data
-
Garrett-Mayer,E. et al. (2008) Cross-study validation and combined analysis of gene expression microarray data. Biostatistics, 9, 333-354.
-
(2008)
Biostatistics
, vol.9
, pp. 333-354
-
-
Garrett-Mayer, E.1
-
10
-
-
18544368641
-
Expression Profiles from Pairwise mRNA Comparisons
-
Geman,D. et al. (2004) Expression Profiles from Pairwise mRNA Comparisons. Stat. Appl. Genet. Mol. Biol., 3, article 19.
-
(2004)
Stat. Appl. Genet. Mol. Biol.
, vol.3
-
-
Geman, D.1
-
11
-
-
84870341638
-
Why your new cancer biomarker may never work: Recurrent patterns and remarkable diversity in biomarker failures
-
Kern,S. (2012) Why your new cancer biomarker may never work: recurrent patterns and remarkable diversity in biomarker failures. Cancer Res., 72, 6097-6101.
-
(2012)
Cancer Res.
, vol.72
, pp. 6097-6101
-
-
Kern, S.1
-
12
-
-
84855897445
-
MetaQC: Objective quality control and inclusion/exclusion criteria for genomic meta-analysis
-
Kang,D. et al. (2012) MetaQC: objective quality control and inclusion/exclusion criteria for genomic meta-analysis. Nucleic Acids Res., 40, e15.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. e15
-
-
Kang, D.1
-
13
-
-
33746108159
-
A sequence-oriented comparison of gene expression measurements across different hybridization-based technologies
-
Kuo,W. et al. (2006) A sequence-oriented comparison of gene expression measurements across different hybridization-based technologies. Nat. Biotechnol., 24, 832-840.
-
(2006)
Nat. Biotechnol.
, vol.24
, pp. 832-840
-
-
Kuo, W.1
-
14
-
-
84908140306
-
Measuring the effect of inter-study variability on estimating prediction error
-
Ma,S. et al. (2014) Measuring the effect of inter-study variability on estimating prediction error. PLoS One, 9, e110840.
-
(2014)
PLoS One
, vol.9
, pp. e110840
-
-
Ma, S.1
-
15
-
-
2942578063
-
A two-gene expression ratio predicts clinical outcome in breast cancer patients treated with tamoxifen
-
Ma,X. et al. (2004) A two-gene expression ratio predicts clinical outcome in breast cancer patients treated with tamoxifen. Cancer Cell, 5, 607-616.
-
(2004)
Cancer Cell
, vol.5
, pp. 607-616
-
-
Ma, X.1
-
16
-
-
84877806149
-
A simple and reproducible breast cancer prognostic test
-
Marchionni,L. et al. (2013) A simple and reproducible breast cancer prognostic test. BMC Genomics, 17, 336.
-
(2013)
BMC Genomics
, vol.17
, pp. 336
-
-
Marchionni, L.1
-
17
-
-
33748491517
-
The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements
-
MAQC Consortium et al. (2006) The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements. Nat. Biotechnol., 24, 1151-1161.
-
(2006)
Nat. Biotechnol.
, vol.24
, pp. 1151-1161
-
-
Consortium, M.1
-
18
-
-
84886892985
-
Development of omics-based clinical tests for prognosis and therapy selection: The challenge of achieving statistical robustness and clinical utility
-
McShane,L. and Polley,M. Development of omics-based clinical tests for prognosis and therapy selection: The challenge of achieving statistical robustness and clinical utility. Clin. Trials, 10, 653-665.
-
Clin. Trials
, vol.10
, pp. 653-665
-
-
McShane, L.1
Polley, M.2
-
19
-
-
77957786147
-
Module-based prediction approach for robust inter-study predictions in microarray data
-
Mi,Z. et al. (2010) Module-based prediction approach for robust inter-study predictions in microarray data. Bioinformatics, 26, 2586-2593.
-
(2010)
Bioinformatics
, vol.26
, pp. 2586-2593
-
-
Mi, Z.1
-
20
-
-
9144254108
-
Inter-platform comparability of microarrays in acute lymphoblastic leukemia
-
Mitchell,S. et al. (2004) Inter-platform comparability of microarrays in acute lymphoblastic leukemia. BMC Genomics, 5, 71.
-
(2004)
BMC Genomics
, vol.5
, pp. 71
-
-
Mitchell, S.1
-
21
-
-
79953062931
-
Genome-wide methylation analysis identifies epigenetically inactivated candidate tumour suppressor genes in renal cell carcinoma
-
Morris,M. et al. (2011) Genome-wide methylation analysis identifies epigenetically inactivated candidate tumour suppressor genes in renal cell carcinoma. Oncogene, 30, 1390-1401.
-
(2011)
Oncogene
, vol.30
, pp. 1390-1401
-
-
Morris, M.1
-
22
-
-
0000551189
-
Popular ensemble methods: An empirical study
-
Opitz,D. and Maclin,R. (1999) Popular ensemble methods: an empirical study. J. Artif. Intell. Res., 11, 169-198.
-
(1999)
J. Artif. Intell. Res.
, vol.11
, pp. 169-198
-
-
Opitz, D.1
Maclin, R.2
-
23
-
-
73949084229
-
Karl Pearson's meta-analysis revisited
-
Owen,A.B. (2009) Karl Pearson's meta-analysis revisited. Ann. Stat., 37, 3867-3892.
-
(2009)
Ann. Stat.
, vol.37
, pp. 3867-3892
-
-
Owen, A.B.1
-
24
-
-
19944422061
-
A multigene assay to predict recurrence of tamoxifentreated, node-negative breast cancer
-
Paik,S. et al. (2004) A multigene assay to predict recurrence of tamoxifentreated, node-negative breast cancer. N. Engl. J. Med., 351, 2817-2826.
-
(2004)
N. Engl. J. Med.
, vol.351
, pp. 2817-2826
-
-
Paik, S.1
-
25
-
-
62449131093
-
Supervised risk predictor of breast cancer based on intrinsic subtypes
-
Parker,J. et al. (2009) Supervised risk predictor of breast cancer based on intrinsic subtypes. J. Clin. Oncol., 27, 1160-1167.
-
(2009)
J. Clin. Oncol.
, vol.27
, pp. 1160-1167
-
-
Parker, J.1
-
26
-
-
77955101694
-
Clinical implications of gene dosage and gene expression patterns in diploid breast carcinoma
-
Parris,T. et al. (2010) Clinical implications of gene dosage and gene expression patterns in diploid breast carcinoma. Clin. Cancer Res., 16, 3860-3874.
-
(2010)
Clin. Cancer Res.
, vol.16
, pp. 3860-3874
-
-
Parris, T.1
-
27
-
-
84894251319
-
DACH1: Its role as a classifier of long term good prognosis in luminal breast cancer
-
Powe, D. et al. (2014) DACH1: its role as a classifier of long term good prognosis in luminal breast cancer. PLoS One, 9, e84428.
-
(2014)
PLoS One
, vol.9
, pp. e84428
-
-
Powe, D.1
-
28
-
-
33847665105
-
Highly accurate two-gene classifier for differentiating gastrointestinal stromal tumors and leiomyosarcomas
-
Price,N. et al. (2007) Highly accurate two-gene classifier for differentiating gastrointestinal stromal tumors and leiomyosarcomas. Proc. Natl. Acad. Sci. USA, 104, 3414-3419.
-
(2007)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 3414-3419
-
-
Price, N.1
-
29
-
-
0347201147
-
Multiclass cancer diagnosis using tumor gene expression signatures
-
Ramaswamy, S. et al. (2001) Multiclass cancer diagnosis using tumor gene expression signatures. Proc. Natl. Acad. Sci. USA, 15149-15154.
-
(2001)
Proc. Natl. Acad. Sci. USA
, pp. 15149-15154
-
-
Ramaswamy, S.1
-
30
-
-
41949125894
-
A 2-gene classifier for predicting response to the farnesyltransferase inhibitor tipifarnib in acutemyeloid leukemia
-
Raponi,M. et al. (2008) A 2-gene classifier for predicting response to the farnesyltransferase inhibitor tipifarnib in acutemyeloid leukemia. Blood, 5, 2589-2596.
-
(2008)
Blood
, vol.5
, pp. 2589-2596
-
-
Raponi, M.1
-
31
-
-
77952821751
-
FOXC1 is a potential prognostic biomarker with functional significance in basal-like breast cancer
-
Ray,P. et al. (2010) FOXC1 is a potential prognostic biomarker with functional significance in basal-like breast cancer. Cancer Res., 70, 3870-3876.
-
(2010)
Cancer Res.
, vol.70
, pp. 3870-3876
-
-
Ray, P.1
-
32
-
-
21444453976
-
Limits of predictive models using microarray data for breast cancer clinical treatment outcome
-
Reid,J. et al. (2005) Limits of predictive models using microarray data for breast cancer clinical treatment outcome. J. Natl. Cancer Inst., 97, 927-930.
-
(2005)
J. Natl. Cancer Inst.
, vol.97
, pp. 927-930
-
-
Reid, J.1
-
33
-
-
65849488472
-
Intra-platform repeatability and inter-platform comparability of microRNA microarray technology
-
Sato,F. et al. (2009) Intra-platform repeatability and inter-platform comparability of microRNA microarray technology. PLoS One, 4, e5540.
-
(2009)
PLoS One
, vol.4
, pp. e5540
-
-
Sato, F.1
-
34
-
-
42649134796
-
Merging two gene-expression studies via cross-platform normalization
-
Shabalin,A. et al. (2008) Merging two gene-expression studies via cross-platform normalization. Bioinformatics, 24, 1154-1160.
-
(2008)
Bioinformatics
, vol.24
, pp. 1154-1160
-
-
Shabalin, A.1
-
36
-
-
60849119837
-
CMA: A comprehensive Bioconductor package for supervised classification with high dimensional data
-
Slawski,M. et al. (2008) CMA: A comprehensive Bioconductor package for supervised classification with high dimensional data. BMC Bioinformatics, 9, 439.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 439
-
-
Slawski, M.1
-
37
-
-
41349115501
-
Meta-analysis of breast cancer microarray studies in conjunction with conserved cis-elements suggest patterns for coordinate regulation
-
Smith,D. et al. (2008) Meta-analysis of breast cancer microarray studies in conjunction with conserved cis-elements suggest patterns for coordinate regulation. BMC Bioinformatics, 28, 63.
-
(2008)
BMC Bioinformatics
, vol.28
, pp. 63
-
-
Smith, D.1
-
38
-
-
77957935139
-
Genomic index of sensitivity to endocrine therapy for breast cancer
-
Symmans,W. et al. (2010) Genomic index of sensitivity to endocrine therapy for breast cancer. J. Clin. Oncol., 28, 4111-4119.
-
(2010)
J. Clin. Oncol.
, vol.28
, pp. 4111-4119
-
-
Symmans, W.1
-
39
-
-
27544451127
-
Simple decision rules for classifying human cancers from gene expression profiles
-
Tan,A. et al. (2005) Simple decision rules for classifying human cancers from gene expression profiles. Bioinformatics, 21, 3896-3904.
-
(2005)
Bioinformatics
, vol.21
, pp. 3896-3904
-
-
Tan, A.1
-
40
-
-
66549106409
-
A statistical framework to infer functional gene associations from multiple biologically interrelated microarray experiments
-
Teng,S. et al. (2007) A statistical framework to infer functional gene associations from multiple biologically interrelated microarray experiments. J. Am. Stat. Assoc., 104, 465-473.
-
(2007)
J. Am. Stat. Assoc.
, vol.104
, pp. 465-473
-
-
Teng, S.1
-
41
-
-
77957773218
-
Identification of gene expression signature in estrogen receptor positive breast carcinoma
-
Thakkar,A. et al. (2010) Identification of gene expression signature in estrogen receptor positive breast carcinoma. Biomark. Cancer, 2, 1-15.
-
(2010)
Biomark. Cancer
, vol.2
, pp. 1-15
-
-
Thakkar, A.1
-
42
-
-
48949119363
-
Evaluation of biological pathways involved in chemotherapy response in breast cancer
-
Tordai,A. et al. (2008) Evaluation of biological pathways involved in chemotherapy response in breast cancer. Breast Cancer Res., 10, R37.
-
(2008)
Breast Cancer Res.
, vol.10
, pp. R37
-
-
Tordai, A.1
-
43
-
-
84861414639
-
Comprehensive literature review and statistical considerations for microarray meta-analysis
-
Tseng,G. et al. (2012) Comprehensive literature review and statistical considerations for microarray meta-analysis. Nucleic Acids Res., 40, 3785-3799.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 3785-3799
-
-
Tseng, G.1
-
44
-
-
7044240645
-
Mutation of GATA3 in human breast tumors
-
Usary,J. et al. (2004) Mutation of GATA3 in human breast tumors. Oncogene, 23, 7669-7678.
-
(2004)
Oncogene
, vol.23
, pp. 7669-7678
-
-
Usary, J.1
-
45
-
-
0037137519
-
A gene-expression signature as a predictor of survival in breast cancer
-
van de Vijver,M. et al. (2002) A gene-expression signature as a predictor of survival in breast cancer. N. Engl. J. Med., 347, 1999-2009.
-
(2002)
N. Engl. J. Med.
, vol.347
, pp. 1999-2009
-
-
Van De Vijver, M.1
-
46
-
-
84926295116
-
Tumor cell migration screen identifies SRPK1 as breast cancer metastasis determinant
-
van Roosmalen,W. et al. (2015) Tumor cell migration screen identifies SRPK1 as breast cancer metastasis determinant. J. Clin. Invest., 125, 1648-1664.
-
(2015)
J. Clin. Invest.
, vol.125
, pp. 1648-1664
-
-
Van Roosmalen, W.1
-
47
-
-
18244409687
-
Gene expression profiling predicts clinical outcome of breast cancer
-
van't Veer,L. et al. (2002) Gene expression profiling predicts clinical outcome of breast cancer. Nature, 415, 530-536.
-
(2002)
Nature
, vol.415
, pp. 530-536
-
-
Van't Veer, L.1
-
48
-
-
84858990934
-
Detecting disease-associated genes with confounding variable adjustment and the impact on genomic meta-analysis: With application to major depressive disorder
-
Wang,X. et al. (2012) Detecting disease-associated genes with confounding variable adjustment and the impact on genomic meta-analysis: With application to major depressive disorder.BMC Bioinformatics, 13, 13-52.
-
(2012)
BMC Bioinformatics
, vol.13
, pp. 13-52
-
-
Wang, X.1
-
49
-
-
27544492493
-
Robust prostate cancer marker genes emerge from direct integration of inter-study microarray data
-
Xu,L. et al. (2005) Robust prostate cancer marker genes emerge from direct integration of inter-study microarray data. Bioinformatics, 20, 3905-3911.
-
(2005)
Bioinformatics
, vol.20
, pp. 3905-3911
-
-
Xu, L.1
-
50
-
-
41749099668
-
Merging microarray data from separate breast cancer studies provides a robust prognostic test
-
Xu,L. et al. (2008) Merging microarray data from separate breast cancer studies provides a robust prognostic test. BMC Bioinformatics, 9, 125.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 125
-
-
Xu, L.1
-
51
-
-
49149121975
-
PCDH8, the human homolog of PAPC, is a candidate tumor suppressor of breast cancer
-
Yu,J. et al. (2008) PCDH8, the human homolog of PAPC, is a candidate tumor suppressor of breast cancer. Oncogene., 27, 4657-4665.
-
(2008)
Oncogene.
, vol.27
, pp. 4657-4665
-
-
Yu, J.1
-
52
-
-
84866450351
-
Frequent silencing of protocadherin 8 by promoter methylation, a candidate tumor suppressor for human gastric cancer
-
Zhang,D. et al. (2012) Frequent silencing of protocadherin 8 by promoter methylation, a candidate tumor suppressor for human gastric cancer. Oncol. Rep., 28, 1785-1791.
-
(2012)
Oncol. Rep.
, vol.28
, pp. 1785-1791
-
-
Zhang, D.1
-
53
-
-
84881257906
-
Breast cancer index identifies early-stage estrogen receptor-positive breast cancer patients at risk for early-and late-distant recurrence
-
Zhang,Y. et al. (2013) Breast cancer index identifies early-stage estrogen receptor-positive breast cancer patients at risk for early-and late-distant recurrence. Clin. Cancer Res., 19, 4196-4205.
-
(2013)
Clin. Cancer Res.
, vol.19
, pp. 4196-4205
-
-
Zhang, Y.1
|